FortiGate units can register FortiClient-equipped endpoints over either an interface-based IPsec VPN or a tunnel-mode SSL VPN. After the user authenticates, the FortiGate unit sends the FortiClient application the IP address and port to be used for registration. If the user accepts the FortiGate invitation to register, registration proceeds and the FortiClient profile is downloaded to the client.

Users without FortiClient Endpoint Security connecting to the SSL VPN through a browser are redirected to a captive portal to download and install the FortiClient software.